Code working well on Arduino Uno is not working with Mega 2560

Question

Following is the code block from my script. It uses timer1. Why it is not compatible with Arduino Mega?

TCCR1A = theTCCR1A; // 0b10000010;
  /*10 clear on match, set at BOTTOM for compA.
   00 compB disconected initially, toggled later to clear on match, set at BOTTOM.
   00
   10 WGM1 1:0 for waveform 15.
   */
  TCCR1B = 0b00011001;
  /*000
   11 WGM1 3:2 for waveform 15.
   001 no prescale on the counter.
   */
  TIMSK1 = 0b00000001;
  /*0000000
   1 TOV1 Flag interrupt enable.
   */
  sei();             // Enable global interrupts.
  // Set outputs pins.
  DDRB   = 0b00000110; // Set PB1 and PB2 as outputs.
  pinMode(13, OUTPUT); // Set trigger pin to output

Answer 1

It's not working because code you write is code that will work only on ATmega328. Every ATmega328 chip will run this code without any problem. If you want that Mega does same task as Uno, then you have to rewrite whole code and use Arduino functions(such as pinMode, digitalRead etc..) or read ATmega2560 datasheet and use ATmega2560 registers. Also Search for ATmega2560 pin layout, you'll need it if you want use registers.